Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 263 of 325
Found at i:82039175 original size:27 final size:27
Alignment explanation
Indices: 82039103--82039191 Score: 73
Period size: 27 Copynumber: 3.4 Consensus size: 27
82039093 GAGAGGGCAT
* *
82039103 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* *
82039130 ATATACAT--GAG-AAATAATAATAATA
1 ATATAAATAATAGTAAA-AATAATAATA
82039155 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
*
82039181 ATA-AAAAAATA
1 ATATAAATAATA
82039192 AAACAAAGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
23 2 0.04
24 10 0.20
25 14 0.28
26 6 0.12
27 15 0.30
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:82039525 original size:24 final size:24
Alignment explanation
Indices: 82039494--82039574 Score: 87
Period size: 27 Copynumber: 3.3 Consensus size: 24
82039484 TAGCCTTTCC
82039494 AAAACAAAAACAACCCTCCTCCAA
1 AAAACAAAAACAACCCTCCTCCAA
*
82039518 AAAACAAAAAAAACAAACCTCCTCCAA
1 AAAAC---AAAAACAACCCTCCTCCAA
*
82039545 AAAACAAAAAAAACACC-CC-CC-A
1 AAAACAAAAACAAC-CCTCCTCCAA
82039567 AAAACAAA
1 AAAACAAA
82039575 GTCTTGAATG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
22 9 0.18
23 2 0.04
24 14 0.28
25 2 0.04
27 23 0.46
ACGTcount: A:0.63, C:0.32, G:0.00, T:0.05
Consensus pattern (24 bp):
AAAACAAAAACAACCCTCCTCCAA
Found at i:82039538 original size:27 final size:27
Alignment explanation
Indices: 82039499--82039559 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
82039489 TTTCCAAAAC
*
82039499 AAAAACAACCCTCCTCCAAAAAACAAA
1 AAAAACAAACCTCCTCCAAAAAACAAA
82039526 AAAAACAAACCTCCTCCAAAAAACAAA
1 AAAAACAAACCTCCTCCAAAAAACAAA
82039553 AAAAACA
1 AAAAACA
82039560 CCCCCCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.64, C:0.30, G:0.00, T:0.07
Consensus pattern (27 bp):
AAAAACAAACCTCCTCCAAAAAACAAA
Found at i:82039692 original size:38 final size:38
Alignment explanation
Indices: 82039650--82039736 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
82039640 GGTGGTTTAG
*
82039650 GTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAGTAA
1 GTGGCCAAGGTGGATGGCCAACAAGGGTGGTGGAGTAA
*
82039688 GTGGCCAAGGTGGATGGCCAACAAGGGTGGTGGAGTAG
1 GTGGCCAAGGTGGATGGCCAACAAGGGTGGTGGAGTAA
82039726 GTGGCCAAGGT
1 GTGGCCAAGGT
82039737 TTTTATTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.23, C:0.14, G:0.47, T:0.16
Consensus pattern (38 bp):
GTGGCCAAGGTGGATGGCCAACAAGGGTGGTGGAGTAA
Found at i:82039747 original size:4 final size:4
Alignment explanation
Indices: 82039738--82039764 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
82039728 GGCCAAGGTT
82039738 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
82039765 TTTGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:82053112 original size:13 final size:13
Alignment explanation
Indices: 82053094--82053119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82053084 GCTCGGCAAG
82053094 GACACGCCCATGT
1 GACACGCCCATGT
82053107 GACACGCCCATGT
1 GACACGCCCATGT
82053120 ACGATTACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:82063648 original size:31 final size:30
Alignment explanation
Indices: 82063603--82063661 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
82063593 AAGATTATTG
82063603 ATAAAATATTTTAAA-AACTTAAATATAATA
1 ATAAAATATTTTAAATAA-TTAAATATAATA
* *
82063633 ATAAATTATATTTAAATAATTTAATATAA
1 ATAAAATAT-TTTAAATAATTAAATATAA
82063662 CGATATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.32
31 15 0.60
32 2 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATATTTTAAATAATTAAATATAATA
Found at i:82064853 original size:5 final size:6
Alignment explanation
Indices: 82064826--82064860 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
82064816 ATAATTTGAT
82064826 AAATAA AAATAAA AAACTAA AAATAA AAATAA AAA
1 AAATAA AAAT-AA AAA-TAA AAATAA AAATAA AAA
82064861 ACATATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.59
7 10 0.37
8 1 0.04
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:82064899 original size:9 final size:9
Alignment explanation
Indices: 82064880--82064929 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
82064870 TTTATACAAA
*
82064880 TAATTCAGT
1 TAATTCGGT
*
82064889 TAATTTGGT
1 TAATTCGGT
*
82064898 TAATTCGGG
1 TAATTCGGT
*
82064907 TAATTCGGG
1 TAATTCGGT
82064916 TAATTCGGT
1 TAATTCGGT
82064925 TAATT
1 TAATT
82064930 TTATACTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:82066786 original size:43 final size:43
Alignment explanation
Indices: 82066717--82066856 Score: 160
Period size: 43 Copynumber: 3.3 Consensus size: 43
82066707 TTATCAAGAT
* *
82066717 TTGATCTTAGGAT-AATGTAGTTTGCTTCAAGGGTCATCGAGAC
1 TTGATCTT-GAATCAATGTAGTCTGCTTCAAGGGTCATCGAGAC
* *
82066760 TTGATCTTGAATCAATTTAGTCTGCTTCAAGGGTCATCGAGAT
1 TTGATCTTGAATCAATGTAGTCTGCTTCAAGGGTCATCGAGAC
** * *
82066803 TTGATCTTGAATCAATG-ATGT-TCGCTTCAATAGTCGTCGAGGC
1 TTGATCTTGAATCAATGTA-GTCT-GCTTCAAGGGTCATCGAGAC
82066846 TTGATCTTGAA
1 TTGATCTTGAA
82066857 AACTGGTTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 5 0.06
43 79 0.94
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (43 bp):
TTGATCTTGAATCAATGTAGTCTGCTTCAAGGGTCATCGAGAC
Found at i:82068529 original size:50 final size:50
Alignment explanation
Indices: 82068412--82068686 Score: 279
Period size: 50 Copynumber: 5.5 Consensus size: 50
82068402 GTGAGAACAC
* * *** *
82068412 GTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTAGGTCACAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGTCACAT
*
82068463 GTGTAGTACTAA-TGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACAT
* * * * * *
82068512 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-ATCACAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGTCACAT
* ** * *
82068563 GTGTAGTACTAAGTGCAGGCTACTACGTTTATTAGATGGTTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACAT
* * * *
82068613 GTGTAGTACTAAGTGTAGGCTACTACGTGTA-CTGAATTGTT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTTAGGTCACAT
*
82068662 GTGTAGTATTAAGTGCAGGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
82068687 TGCATACCAC
Statistics
Matches: 185, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
49 53 0.29
50 82 0.44
51 49 0.26
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACAT
Found at i:82068576 original size:51 final size:50
Alignment explanation
Indices: 82068452--82068695 Score: 190
Period size: 49 Copynumber: 4.9 Consensus size: 50
82068442 TTAAGATGGT
* * * *
82068452 TTAGGTCACATGTGTAGTACTAA-TGCAGGCTACTACGTGTACCAGATAG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAC
* * * *
82068501 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAAC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-AAC
** ** ***
82068552 TTCA-ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTTTATTAGATGG
1 TT-AGATCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAC
* * * * * *
82068602 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CTG-AAT
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAC
* * * * * *
82068650 TGTTGGTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCATACCA
1 T-TAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCA
82068696 CATAGCTTCA
Statistics
Matches: 154, Mismatches: 35, Indels: 11
0.77 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 57 0.37
50 57 0.37
51 38 0.25
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAC
Found at i:82068622 original size:101 final size:100
Alignment explanation
Indices: 82068457--82068637 Score: 290
Period size: 101 Copynumber: 1.8 Consensus size: 100
82068447 ATGGTTTAGG
*
82068457 TCACATGTGTAGTACTAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
82068522 AAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 AAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
* ** * *
82068557 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTTTATTAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAA-TGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
82068622 TAAGTGTAGGCTACTA
65 TAAGTGCAGGCTACTA
82068638 CGTGTACTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 18 0.25
101 55 0.75
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
Found at i:82068705 original size:150 final size:151
Alignment explanation
Indices: 82068412--82068694 Score: 430
Period size: 150 Copynumber: 1.9 Consensus size: 151
82068402 GTGAGAACAC
* *
82068412 GTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTAGGTCACATGTGTAGTACTAATG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTTTAAGATGGTTTAGGTCACATGTGTAGTACTAATG
*
82068477 CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
66 CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
82068542 ACCCGACAACTTCAATCACAT
131 ACCCGACAACTTCAATCACAT
* *
82068563 GTGTAGTACTAAGTGCAGGCTACTACGT-TTATTAGATGG-TTAGGTCACGTGTGTAGTACTAAG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTT-TAAGATGGTTTAGGTCACATGTGTAGTACTAA-
* * * *
82068626 TGTAGGCTACTACGTGTA-CTGAATTGTT-GGTCGCATGTGTAGTATTAAGTGCAGGCTACTATG
64 TGCAGGCTACTACGTGTACCAG-ATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
82068689 CATACC
128 CATACC
82068695 ACATAGCTTC
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
150 65 0.54
151 55 0.46
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (151 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTTTAAGATGGTTTAGGTCACATGTGTAGTACTAATG
CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
ACCCGACAACTTCAATCACAT
Found at i:82068919 original size:16 final size:15
Alignment explanation
Indices: 82068898--82068927 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
82068888 GAATGGAGTA
82068898 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
82068914 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
82068928 TGAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:82071024 original size:45 final size:46
Alignment explanation
Indices: 82070974--82071060 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 46
82070964 TTTTTGGATG
** *
82070974 AACAGTTTAAACTTGTGCTGAGGAGTATGATCA-TTATTTTGTGCT
1 AACAGTTTAAACTCATGCTGAGGAGCATGATCATTTATTTTGTGCT
* * *
82071019 AACAGTTTAAGCTCATGCTTAGGAGCATTATCATTTATTTTG
1 AACAGTTTAAACTCATGCTGAGGAGCATGATCATTTATTTTG
82071061 GATGAACAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 27 0.77
46 8 0.23
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (46 bp):
AACAGTTTAAACTCATGCTGAGGAGCATGATCATTTATTTTGTGCT
Found at i:82071074 original size:46 final size:46
Alignment explanation
Indices: 82070935--82071095 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 46
82070925 TATGGATGTG
* *
82070935 CAGTTTAAGCTCACGCTTAGGAGC---AT-ATGT-TTTTGGATGAA
1 CAGTTTAAGCTCATGCTTAGGAGCATTATCATTTATTTTGGATGAA
* ** * * * *
82070976 CAGTTTAAACTTGTGCTGAGGAGTATGATCA-TTATTTTGTGCT-AA
1 CAGTTTAAGCTCATGCTTAGGAGCATTATCATTTATTTTG-GATGAA
82071021 CAGTTTAAGCTCATGCTTAGGAGCATTATCATTTATTTTGGATGAA
1 CAGTTTAAGCTCATGCTTAGGAGCATTATCATTTATTTTGGATGAA
* ** *
82071067 CAATTTAAGCTTGTACTTAGGAGCATTAT
1 CAGTTTAAGCTCATGCTTAGGAGCATTAT
82071096 TGTTTAGGAG
Statistics
Matches: 93, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 18 0.19
44 3 0.03
45 35 0.38
46 37 0.40
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (46 bp):
CAGTTTAAGCTCATGCTTAGGAGCATTATCATTTATTTTGGATGAA
Found at i:82081702 original size:27 final size:27
Alignment explanation
Indices: 82081670--82081728 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
82081660 GTTAAATAAA
* *
82081670 ATTAAATGGACATTCTAAAATTAAAAT
1 ATTAAATAGACACTCTAAAATTAAAAT
*
82081697 ATTAAATATACACTCTAAAATTAAAAT
1 ATTAAATAGACACTCTAAAATTAAAAT
*
82081724 TTTAA
1 ATTAA
82081729 TTTTTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (27 bp):
ATTAAATAGACACTCTAAAATTAAAAT
Found at i:82083307 original size:46 final size:49
Alignment explanation
Indices: 82083195--82083512 Score: 229
Period size: 46 Copynumber: 6.7 Consensus size: 49
82083185 GGTTGTTTGT
* * * * *
82083195 GAGCCAGGGTAAGACCATGTCTGGGACATCGCAAT-GGCATTGAGACG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCCTCGAGATGTA
*
82083243 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
82083290 -AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGA--TA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTA
* * * * * *
82083334 -TGTCAATGTAAGACCATGCCTGGGACATGGCATCGGCAC-GGATATGTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A
* * * ** * *
82083383 GAGCTAGTGTAAAACCATGTCTAGGACATGGTGTCGGCCTCGA-TTTTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-A
* * * *
82083432 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA--GATGTA
**
82083481 -A-CCAGTGTAAGACCATGTCTGGGGTATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
82083513 TGGCATTATA
Statistics
Matches: 217, Mismatches: 38, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
44 12 0.06
45 17 0.08
46 59 0.27
47 43 0.20
48 20 0.09
49 35 0.16
50 30 0.14
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Found at i:82095797 original size:14 final size:13
Alignment explanation
Indices: 82095774--82095805 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
82095764 GGAATATCAA
82095774 AACAATAATTAAG
1 AACAATAATTAAG
82095787 AACATATAATTAAG
1 AACA-ATAATTAAG
82095801 AACAA
1 AACAA
82095806 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:82101423 original size:26 final size:26
Alignment explanation
Indices: 82101394--82101443 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
82101384 CCAACACATC
82101394 AATATCGCAACAAAGCTGCAAGTAAT
1 AATATCGCAACAAAGCTGCAAGTAAT
* *
82101420 AATATCGCAGCAAAGCTGCCAGTA
1 AATATCGCAACAAAGCTGCAAGTA
82101444 TCAGTATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
AATATCGCAACAAAGCTGCAAGTAAT
Found at i:82105027 original size:20 final size:20
Alignment explanation
Indices: 82104998--82105044 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
82104988 TATTATATGT
*
82104998 ATTAGCACATGTTTGAATGC
1 ATTAGAACATGTTTGAATGC
82105018 ATTAGAACATGTTTGAATGC
1 ATTAGAACATGTTTGAATGC
82105038 ATTAGAA
1 ATTAGAA
82105045 TTAGTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTAGAACATGTTTGAATGC
Found at i:82106344 original size:36 final size:37
Alignment explanation
Indices: 82106253--82106346 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 37
82106243 ATAGGCTTAC
* * * * *
82106253 ATCCTATGACAAACTATTATCTTTAAAACTAGAGACGT
1 ATCCCATGACAAACCACTATCCTTAAAACTAAAGAC-T
* *
82106291 ATCCCATAACAAGCCACTATCCTTAAAACTAAAGA-T
1 ATCCCATGACAAACCACTATCCTTAAAACTAAAGACT
82106327 ATCCCATGACAAACCACTAT
1 ATCCCATGACAAACCACTAT
82106347 GCTAGAAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 19 0.40
38 28 0.60
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (37 bp):
ATCCCATGACAAACCACTATCCTTAAAACTAAAGACT
Found at i:82107791 original size:5 final size:5
Alignment explanation
Indices: 82107781--82107810 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
82107771 TGTTTATTCC
82107781 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
82107811 GGTATTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:82110025 original size:21 final size:21
Alignment explanation
Indices: 82109962--82110027 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
82109952 TTAACTTCGT
82109962 CAACTAAGCCCACAGTTTCTG
1 CAACTAAGCCCACAGTTTCTG
* * * *
82109983 CAGCCAAGGCTC-CA-TCTCCTG
1 CAACTAA-GCCCACAGT-TTCTG
82110004 CAACTAAGCCCACAGTTTCTG
1 CAACTAAGCCCACAGTTTCTG
82110025 CAA
1 CAA
82110028 GATCCTCCAC
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.21
Consensus pattern (21 bp):
CAACTAAGCCCACAGTTTCTG
Found at i:82111681 original size:5 final size:5
Alignment explanation
Indices: 82111671--82111696 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
82111661 AGGATAGGTT
82111671 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
82111697 GTATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:82115689 original size:24 final size:24
Alignment explanation
Indices: 82115657--82115706 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
82115647 GAGTAATAAG
82115657 TTAGTCCAAAGATTAATTCATTGC
1 TTAGTCCAAAGATTAATTCATTGC
82115681 TTAGTCCAAAGATTAATTCATTGC
1 TTAGTCCAAAGATTAATTCATTGC
82115705 TT
1 TT
82115707 GGCATAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (24 bp):
TTAGTCCAAAGATTAATTCATTGC
Found at i:82138415 original size:74 final size:74
Alignment explanation
Indices: 82138345--82138508 Score: 276
Period size: 74 Copynumber: 2.2 Consensus size: 74
82138335 ATTGGCTCGT
* * *
82138345 ATGAGCTTCCTGATTATGACTCTTATGAGCTTCTTATTATACAGCCCGGATAAGCTTCCCGTTAC
1 ATGAGCTTCCTGATTATGACTCTTATGAGCTTCTCATTATACAACCCAGATAAGCTTCCCGTTAC
82138410 ATGGCTCAC
66 ATGGCTCAC
* *
82138419 ATGAGCTTCCTGATTATGGCTCTTATGAGCTTCTCGTTATACAACCCAGATAAGCTTCCCGTTAC
1 ATGAGCTTCCTGATTATGACTCTTATGAGCTTCTCATTATACAACCCAGATAAGCTTCCCGTTAC
82138484 ATGGCTCAC
66 ATGGCTCAC
82138493 ATGAGCTTCCT-ATTAT
1 ATGAGCTTCCTGATTAT
82138509 ATGGCTTGAG
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 5 0.06
74 80 0.94
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (74 bp):
ATGAGCTTCCTGATTATGACTCTTATGAGCTTCTCATTATACAACCCAGATAAGCTTCCCGTTAC
ATGGCTCAC
Found at i:82138425 original size:25 final size:25
Alignment explanation
Indices: 82138397--82138502 Score: 90
Period size: 25 Copynumber: 4.3 Consensus size: 25
82138387 AGCCCGGATA
82138397 AGCTTCCCGTTACATGGCTCACATG
1 AGCTTCCCGTTACATGGCTCACATG
* **
82138422 AGCTTCCTGATT--ATGGCTCTTATG
1 AGCTTCCCG-TTACATGGCTCACATG
* * *** * * *
82138446 AGCTTCTCGTTATACAACCCAGATA
1 AGCTTCCCGTTACATGGCTCACATG
82138471 AGCTTCCCGTTACATGGCTCACATG
1 AGCTTCCCGTTACATGGCTCACATG
82138496 AGCTTCC
1 AGCTTCC
82138503 TATTATATGG
Statistics
Matches: 58, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
23 2 0.03
24 17 0.29
25 37 0.64
26 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGTTACATGGCTCACATG
Found at i:82138512 original size:25 final size:26
Alignment explanation
Indices: 82138397--82138514 Score: 68
Period size: 25 Copynumber: 4.8 Consensus size: 26
82138387 AGCCCGGATA
* *
82138397 AGCTTCC-CGTTACATGGCTCACATG
1 AGCTTCCTCATTATATGGCTCACATG
* **
82138422 AGCTTCCTGA-T-TATGGCTCTTATG
1 AGCTTCCTCATTATATGGCTCACATG
* *** * * *
82138446 AGCTT-CTCGTTATACAACCCAGATA
1 AGCTTCCTCATTATATGGCTCACATG
* *
82138471 AGCTTCC-CGTTACATGGCTCACATG
1 AGCTTCCTCATTATATGGCTCACATG
82138496 AGCTTCCT-ATTATATGGCT
1 AGCTTCCTCATTATATGGCT
82138515 TGAGAAAGAG
Statistics
Matches: 65, Mismatches: 23, Indels: 10
0.66 0.23 0.10
Matches are distributed among these distances:
23 2 0.03
24 16 0.25
25 46 0.71
26 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (26 bp):
AGCTTCCTCATTATATGGCTCACATG
Found at i:82156541 original size:15 final size:15
Alignment explanation
Indices: 82156521--82156550 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
82156511 AAGAAGTCCG
82156521 AACTCGTTGAGTGGT
1 AACTCGTTGAGTGGT
82156536 AACTCGTTGAGTGGT
1 AACTCGTTGAGTGGT
82156551 CCAGGTTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.33, T:0.33
Consensus pattern (15 bp):
AACTCGTTGAGTGGT
Found at i:82156651 original size:43 final size:42
Alignment explanation
Indices: 82156538--82156653 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
82156528 TGAGTGGTAA
* * ** *
82156538 CTCGTTGAGTGGTCCAGGTTCGTGATATATGTGGCATCCGAG
1 CTCGTTGAGTGGTCCAGGTTCATAATGGATGCGGCATCCGAG
* ** * *
82156580 CTCTTTGAGTGGTCTGGGTTTATTATGGATGCGAGCATCCGAG
1 CTCGTTGAGTGGTCCAGGTTCATAATGGATGCG-GCATCCGAG
*
82156623 CTCGTTGAGTGGTCCAAGTTCATAATGGATG
1 CTCGTTGAGTGGTCCAGGTTCATAATGGATG
82156654 TGATACATAT
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.33
Consensus pattern (42 bp):
CTCGTTGAGTGGTCCAGGTTCATAATGGATGCGGCATCCGAG
Found at i:82170924 original size:15 final size:14
Alignment explanation
Indices: 82170904--82170954 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
82170894 ACACTCATTT
82170904 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
82170918 ATCTTTTTC-TTTTC
1 -TCTTTTTCTTTTTC
*
82170932 TCATTTTTCTTTTCGC
1 TC-TTTTTCTTTT-TC
82170948 TCTTTTT
1 TCTTTTT
82170955 TATTGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.06
14 11 0.34
15 16 0.50
16 3 0.09
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.73
Consensus pattern (14 bp):
TCTTTTTCTTTTTC
Found at i:82170930 original size:14 final size:13
Alignment explanation
Indices: 82170904--82170945 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 13
82170894 ACACTCATTT
82170904 TCTTTTTCTTTTTC
1 TCTTTTTC-TTTTC
82170918 ATCTTTTTCTTTTC
1 -TCTTTTTCTTTTC
82170932 TCATTTTTCTTTTC
1 TC-TTTTTCTTTTC
82170946 GCTCTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.08
14 16 0.62
15 8 0.31
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTTTTTCTTTTC
Found at i:82178974 original size:10 final size:10
Alignment explanation
Indices: 82178959--82178988 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
82178949 AGTACTAATA
82178959 ATTTTAAATT
1 ATTTTAAATT
*
82178969 ATTTTAAATG
1 ATTTTAAATT
82178979 ATTTTAAATT
1 ATTTTAAATT
82178989 CAAGTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
ATTTTAAATT
Found at i:82184789 original size:43 final size:43
Alignment explanation
Indices: 82184664--82184825 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
82184654 CAAAAAGCTC
*
82184664 GTACAATGCCAACGTCCCAGATGTGGTCTTACATGT-AATCAA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCAA
* * *
82184706 ATATCGATG-CAACTATCCCAGACAG-GGTCTTACATG-AAATCAA
1 GTA-CAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAAATCAA
82184749 GTACAATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCATAA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACATGTAAATC--AA
* * * *
82184794 GT-CGATGCCAATGTCCCAAATGTGGTCTTACA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACA
82184826 CGAAAACACA
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 39 0.39
44 27 0.27
45 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
GTACAATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCAA
Found at i:82191654 original size:158 final size:159
Alignment explanation
Indices: 82191375--82191695 Score: 520
Period size: 158 Copynumber: 2.0 Consensus size: 159
82191365 CGACCTACCC
* * * *
82191375 ACATGGGCGTGTACTCTGGCTATGTGAAGTCTACACCTTTTTATGAAAAAATCATTTAATTTTAA
1 ACATAGGCATGTACTCTGGCCATGTGAAGTCTACAACTTTTTATGAAAAAATCATTTAATTTTAA
* * *
82191440 TTAACCACACGGTCTGGCCACACGGGTGTGTGATGTGGCCGTGTGACTCTAAATTGGTGCTGACG
66 TTAACCACACGGTCTGGCCACACGAGCGTGTGATGTGGCCGTGTGACCCTAAATTGGTGCTGACG
**
82191505 TCATAGTC-GAAGAGTTACACGGTCGGAGG
131 TCATAGTCAG-AGAGTTACACGACCGGAGG
*
82191534 ACATAGGCATGTACTCTGGCCATGTGAAGTCTACAACTTTTTATGAAAAATTCATTT-ATTTTAA
1 ACATAGGCATGTACTCTGGCCATGTGAAGTCTACAACTTTTTATGAAAAAATCATTTAATTTTAA
*
82191598 TTAACCACACGGTCTGGCCACACGAGCGTGTGATGTGGCCGTGTGACCCTAGATTGGTGCTGACG
66 TTAACCACACGGTCTGGCCACACGAGCGTGTGATGTGGCCGTGTGACCCTAAATTGGTGCTGACG
82191663 TCATAGTCAGAGAGTTACACGACCGGAGG
131 TCATAGTCAGAGAGTTACACGACCGGAGG
82191692 ACAT
1 ACAT
82191696 GGACGTGTAG
Statistics
Matches: 150, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
158 97 0.65
159 53 0.35
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (159 bp):
ACATAGGCATGTACTCTGGCCATGTGAAGTCTACAACTTTTTATGAAAAAATCATTTAATTTTAA
TTAACCACACGGTCTGGCCACACGAGCGTGTGATGTGGCCGTGTGACCCTAAATTGGTGCTGACG
TCATAGTCAGAGAGTTACACGACCGGAGG
Found at i:82193642 original size:11 final size:11
Alignment explanation
Indices: 82193626--82193651 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
82193616 TTTTTTTCAT
82193626 TTGTAAATCTA
1 TTGTAAATCTA
82193637 TTGTAAATCTA
1 TTGTAAATCTA
82193648 TTGT
1 TTGT
82193652 CAATGAGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (11 bp):
TTGTAAATCTA
Found at i:82201027 original size:68 final size:67
Alignment explanation
Indices: 82200954--82201104 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 67
82200944 CATCATGTGT
* * *
82200954 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTTGC-TGGGTGATACCAGTGAAGGACACCA
82201017 TGTAG
63 TGTAG
* * * *
82201022 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTTGCTGTGTGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTTGCTGGGTGATACCA-GTGAAGGACACCATG
82201085 TAG
65 TAG
82201088 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
82201105 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
63 8 0.11
64 15 0.21
65 5 0.07
66 27 0.38
67 2 0.03
68 14 0.20
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTTGCTGGGTGATACCAGTGAAGGACACCATGT
AG
Found at i:82202248 original size:2 final size:2
Alignment explanation
Indices: 82202241--82202273 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
82202231 TAATGACATG
82202241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82202274 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82203622 original size:26 final size:26
Alignment explanation
Indices: 82203583--82203686 Score: 145
Period size: 26 Copynumber: 4.0 Consensus size: 26
82203573 TGGTACAAAT
82203583 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
82203609 CGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
82203635 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
82203661 TGATAATAGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82203687 AGATGGGAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:82210623 original size:26 final size:26
Alignment explanation
Indices: 82210594--82210700 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
82210584 TGGTACAAAT
82210594 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
82210620 TGATAAT-GATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82210645 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
82210671 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82210697 TGAT
1 TGAT
82210701 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:82210654 original size:51 final size:52
Alignment explanation
Indices: 82210594--82210700 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
82210584 TGGTACAAAT
82210594 TGATAATGGGTTAGGTAAATGTTCCATGATAAT-GATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
82210645 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
82210697 TGAT
1 TGAT
82210701 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 33 0.62
52 20 0.38
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:82212202 original size:25 final size:26
Alignment explanation
Indices: 82212174--82212225 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
82212164 TTTACAGTTT
82212174 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
82212199 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
82212225 T
1 T
82212226 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:82217410 original size:2 final size:2
Alignment explanation
Indices: 82217403--82217428 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
82217393 ACAAAGATTC
82217403 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
82217429 TGCAAGGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:82225685 original size:46 final size:44
Alignment explanation
Indices: 82225546--82225812 Score: 162
Period size: 46 Copynumber: 5.7 Consensus size: 44
82225536 GGGGTTAGGT
** * * *
82225546 GCTGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATATCTAT
1 GCTGATG-CATGTCCCAGACAT-GTCTTACAC---TGATA-CATCTCGAG
*
82225596 GCTGATGCCATGTCCCAGACATGGTCTTATACTGATACATCTCGTA-
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGATACATCTCG-AG
* * *
82225642 GCTGATGCATGTCCCCGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACT-G-ATACATCTCGAG
* * * * *
82225688 GCCGATACATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACT-G-A-TACATCTCGAG
** * * *
82225734 GCCAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAAT-GTG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGA-T-ACAT-CTCGAG
*
82225782 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
82225813 AGCTCACACA
Statistics
Matches: 183, Mismatches: 24, Indels: 24
0.79 0.10 0.10
Matches are distributed among these distances:
44 9 0.05
45 15 0.08
46 75 0.41
47 34 0.19
48 18 0.10
49 1 0.01
50 31 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGATACATCTCGAG
Found at i:82229264 original size:46 final size:45
Alignment explanation
Indices: 82229211--82229386 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
82229201 TATTTGGGCA
82229211 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
82229257 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
82229304 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
82229350 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
82229387 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:82229366 original size:93 final size:93
Alignment explanation
Indices: 82229207--82229378 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
82229197 AGGATATTTG
* *
82229207 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
82229272 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
82229300 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
82229365 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
82229379 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:82235047 original size:13 final size:14
Alignment explanation
Indices: 82235024--82235052 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
82235014 AACCAAAAAT
82235024 ATAATAAAGTCCAA
1 ATAATAAAGTCCAA
82235038 ATAA-AAAGTCCAA
1 ATAATAAAGTCCAA
82235051 AT
1 AT
82235053 TCCATTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
ATAATAAAGTCCAA
Found at i:82236272 original size:4 final size:4
Alignment explanation
Indices: 82236249--82236422 Score: 92
Period size: 4 Copynumber: 43.8 Consensus size: 4
82236239 TTAAGCCCTT
* * *
82236249 TTTA TTTTA ATTA TTTTA TTTA TTTA TTTA CTTG TTTA TTTA TTTA TTGT-
1 TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA
* * * * *
82236299 TCCT- TTTA TTTA TTTA TTTA TTTG TTCA TTTA CTTA TTTA TTCA TTTA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * ** **
82236347 TAT- TTTA TTT- TTTA TTTTA ATCC TTGTA TTTA TTTA TTTA -TTA TTCC
1 TTTA TTTA TTTA TTTA -TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA
* * *
82236394 TTCA TTT- TTTA TAT- TTTA TTTT TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
82236423 TCTATCATCG
Statistics
Matches: 126, Mismatches: 32, Indels: 23
0.70 0.18 0.13
Matches are distributed among these distances:
3 14 0.11
4 98 0.78
5 14 0.11
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:82236439 original size:58 final size:60
Alignment explanation
Indices: 82236343--82236459 Score: 143
Period size: 58 Copynumber: 2.0 Consensus size: 60
82236333 TATTTATTCA
* * * *
82236343 TTTATATTTTATTTTTTATTTTAATCCTTGTATTTATTTA-TTTA-TTATTCCTTCATTT
1 TTTATATTTTATTTTTTATTTTAATCATCGTATCTATTTATTTTATTTATGCCTTCATTT
*
82236401 TTTATATTTTATTTTTTTATTTTCTATCATCG-A-CTATTTATTTTATTTATGCCTTCATT
1 TTTATATTTTA-TTTTTTATTTT-AATCATCGTATCTATTTATTTTATTTATGCCTTCATT
82236460 ATTATTATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
58 17 0.34
59 16 0.32
60 17 0.34
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.67
Consensus pattern (60 bp):
TTTATATTTTATTTTTTATTTTAATCATCGTATCTATTTATTTTATTTATGCCTTCATTT
Found at i:82236478 original size:14 final size:15
Alignment explanation
Indices: 82236461--82236490 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
82236451 GCCTTCATTA
82236461 TTATTATTA-CTATT
1 TTATTATTATCTATT
82236475 TTATTATTATCTATT
1 TTATTATTATCTATT
82236490 T
1 T
82236491 ATCTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATTATCTATT
Found at i:82239854 original size:27 final size:27
Alignment explanation
Indices: 82239824--82239962 Score: 131
Period size: 27 Copynumber: 5.2 Consensus size: 27
82239814 TTTAGTTTAC
*
82239824 TAAAATTACCGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTCGACTTG
** * *
82239851 TAAAATTATTGAAATACCTTGGACTTG
1 TAAAATTACCGAAATACCCTCGACTTG
* * *
82239878 TAAAATTACC-AAAGTACCC-CCAGTTTA
1 TAAAATTACCGAAA-TACCCTCGA-CTTG
* *
82239905 TAAAATTACCGAAATATCGTCGA-TTG
1 TAAAATTACCGAAATACCCTCGACTTG
**
82239931 TAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTACCGAAATACCCTCGACTTG
82239958 TAAAA
1 TAAAA
82239963 ATTATAAAAG
Statistics
Matches: 87, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
26 25 0.29
27 57 0.66
28 5 0.06
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGACTTG
Found at i:82239958 original size:80 final size:82
Alignment explanation
Indices: 82239817--82240010 Score: 250
Period size: 80 Copynumber: 2.4 Consensus size: 82
82239807 AGAATACTTT
* *
82239817 AGTTTACTAAAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCTTGGACTTGT-AA
1 AGTTTA-TAAAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGACTTGTAAA
*
82239881 AATTACCAAAGTACCCCC
65 AATTACAAAAGTACCCCC
* *
82239899 AGTTTATAAAATTACCGAAATATCGTCGA-TTGTAAAATTATTGAAATACCCTCGACTTGTAAAA
1 AGTTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGACTTGTAAAA
* *
82239963 ATTATAAAAGTACCCCG
66 ATTACAAAAGTACCCCC
* * ***
82239980 A-TTTACAGAATTACCGTTTTACCCTCGATTT
1 AGTTTATAAAATTACCGAAATACCCTCGATTT
82240011 ACAGAATTAC
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
80 49 0.51
81 41 0.43
82 6 0.06
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.32
Consensus pattern (82 bp):
AGTTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGACTTGTAAAA
ATTACAAAAGTACCCCC
Found at i:82239976 original size:28 final size:26
Alignment explanation
Indices: 82239835--82239982 Score: 93
Period size: 27 Copynumber: 5.5 Consensus size: 26
82239825 AAAATTACCG
*
82239835 AAATACCCTCGATTTGTAAAATTATTG
1 AAATACCCTCGA-TTGTAAAATTATTA
* * **
82239862 AAATACCTTGGACTTGTAAAATTACCA
1 AAATACCCTCGA-TTGTAAAATTATTA
* * * * ***
82239889 AAGTACCCCCAGTTTATAAAATTACCG
1 AAATACCCTC-GATTGTAAAATTATTA
* * *
82239916 AAATATCGTCGATTGTAAAATTATTG
1 AAATACCCTCGATTGTAAAATTATTA
82239942 AAATACCCTCGACTTGTAAAAATTA-TA
1 AAATACCCTCGA-TTGT-AAAATTATTA
82239969 AAAGTACCC-CGATT
1 AAA-TACCCTCGATT
82239983 TACAGAATTA
Statistics
Matches: 93, Mismatches: 24, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
26 24 0.26
27 56 0.60
28 13 0.14
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATACCCTCGATTGTAAAATTATTA
Found at i:82240073 original size:81 final size:80
Alignment explanation
Indices: 82239978--82240265 Score: 317
Period size: 81 Copynumber: 3.6 Consensus size: 80
82239968 AAAAGTACCC
* * * *
82239978 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTCACCTTCAATTTATAGA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATA-A
* * *
82240043 ATTACCATTTTACTTT
65 ATTATCGTTTTACTCT
* * * * * *
82240059 CGATTTATAGAATTACCATTTTACCCTCAAATTATAGAATTACCGTTTTACCCTCGATTTACAAA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAA
82240124 GTTATCGTTTTA-TCCT
66 -TTATCGTTTTACT-CT
* * * *
82240140 CAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAT-AA
*
82240205 ATTATCGTTTTACCCT
65 ATTATCGTTTTACTCT
*** * * *
82240221 CGATTTACAGAATTATTGTTTTACCCTTGGTTTACAAAATTACCA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCA
82240266 AAATACCCCT
Statistics
Matches: 173, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
80 3 0.02
81 167 0.97
82 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (80 bp):
CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAA
TTATCGTTTTACTCT
Found at i:82240247 original size:27 final size:27
Alignment explanation
Indices: 82239973--82240235 Score: 314
Period size: 27 Copynumber: 9.8 Consensus size: 27
82239963 ATTATAAAAG
* *
82239973 TACCC-CGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
82239999 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
82240026 CACCTTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
**
82240053 TACTTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
82240080 TACCCTCAAATTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
82240107 TACCCTCGATTTACA-AAGTTATCGTTT
1 TACCCTCGATTTATAGAA-TTACCATTT
* * *
82240134 TATCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
82240161 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
82240188 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
82240215 TACCCTCGATTTACAGAATTA
1 TACCCTCGATTTATAGAATTA
82240236 TTGTTTTACC
Statistics
Matches: 204, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 7 0.03
27 195 0.96
28 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:82240272 original size:27 final size:27
Alignment explanation
Indices: 82240242--82240341 Score: 155
Period size: 27 Copynumber: 3.7 Consensus size: 27
82240232 ATTATTGTTT
*
82240242 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
82240269 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
82240296 TACCCTTGGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
82240323 TACCCTTGGTTTATAAAAT
1 TACCCTTGGTTTATAAAAT
82240342 GTTTATAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:82240273 original size:54 final size:54
Alignment explanation
Indices: 82239973--82240265 Score: 302
Period size: 54 Copynumber: 5.4 Consensus size: 54
82239963 ATTATAAAAG
* * * * *
82239973 TACCC-CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* * * * ** * * *
82240026 CACCTTCAATTTATAGAATTACCATTTTACTTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* * * *
82240080 TACCCTCAAATTATAGAATTACCGTTTTACCCTCGATTTACA-AAGTTATCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAA-TTATCGTTT
* * * * *
82240134 TATCCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* * *
82240188 TACCCTCGATTTATAAAATTATCGTTTTACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* * *
82240242 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTATAAAATTACCA
82240266 AAATACCCCT
Statistics
Matches: 200, Mismatches: 37, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
53 5 0.03
54 193 0.96
55 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
Found at i:82240352 original size:38 final size:38
Alignment explanation
Indices: 82240304--82240379 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
82240294 AATACCCTTG
* * * *
82240304 GTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
1 GTTTATAAAATTACCAAAATACCCCTAGTTTATAAAAT
* *
82240342 GTTTATAAAATTGCCAAAATACCCCTAGTTTGTAAAAT
1 GTTTATAAAATTACCAAAATACCCCTAGTTTATAAAAT
82240380 TACCAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (38 bp):
GTTTATAAAATTACCAAAATACCCCTAGTTTATAAAAT
Found at i:82240377 original size:27 final size:26
Alignment explanation
Indices: 82240341--82240433 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
82240331 GTTTATAAAA
* *
82240341 TGTTTATAAAATTGCCAAAATACCCC
1 TGTTTGTAAAATTACCAAAATACCCC
82240367 TAGTTTGTAAAATTACCAAAATACCCC
1 T-GTTTGTAAAATTACCAAAATACCCC
* *
82240394 TGATTTGTGAAATTATCGAAAA-A-CCC
1 TG-TTTGTAAAATTA-CCAAAATACCCC
82240420 TCGATTTGTAAAAT
1 T-G-TTTGTAAAAT
82240434 ACTGAAATAC
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.10
27 47 0.81
28 5 0.09
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (26 bp):
TGTTTGTAAAATTACCAAAATACCCC
Found at i:82240420 original size:92 final size:92
Alignment explanation
Indices: 82240250--82240420 Score: 263
Period size: 92 Copynumber: 1.9 Consensus size: 92
82240240 TTTACCCTTG
* * *
82240250 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAAT
*
82240315 TACTAAAATACCCTTGGTTTATAAAAT
66 TACGAAAATACCCTTGGTTTATAAAAT
* * *
82240342 GTTTATAAAATTGCCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAAT
82240407 TATCGAAAA-ACCCT
66 TA-CGAAAATACCCT
82240421 CGATTTGTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 66 0.93
93 5 0.07
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (92 bp):
GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAAT
TACGAAAATACCCTTGGTTTATAAAAT
Found at i:82240466 original size:27 final size:27
Alignment explanation
Indices: 82240437--82240652 Score: 288
Period size: 27 Copynumber: 8.0 Consensus size: 27
82240427 GTAAAATACT
* *
82240437 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
82240464 GAAATACCCCTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
82240491 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
82240518 GAAATACTCCTGTAGGGTAGAACTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
***
82240545 GAAATACCCCTGTAGGGTAGAACCGCC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
82240572 GAAATACCCCTGTAAGGTAGAACTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
82240599 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
82240626 GAGATACCCTTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
82240653 ATTTTGCCCT
Statistics
Matches: 170, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 170 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:82240952 original size:25 final size:25
Alignment explanation
Indices: 82240855--82240950 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
82240845 AGGAAGTGCT
* * *
82240855 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
82240880 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
82240905 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
82240930 AAAAGGGCTTTGCCTCCAGTT
1 AAAAGGGCTTTGCC-CCAGTT
82240951 ATATGATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 59 0.91
26 6 0.09
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:82243329 original size:27 final size:27
Alignment explanation
Indices: 82243294--82243907 Score: 286
Period size: 27 Copynumber: 22.9 Consensus size: 27
82243284 AATACTTTAG
82243294 TTTACTAAAATTACCGAAATACCCTCGA
1 TTTA-TAAAATTACCGAAATACCCTCGA
* * * *
82243322 TTTGTAAAATTACTGAAATACCTTGGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * *
82243349 CTTGTAAAATTACC-AAAGTACCCCCGA
1 TTTATAAAATTACCGAAA-TACCCTCGA
*
82243376 TTTATAAAATTACCGAAA-ACCGTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* *
82243402 -TTGTAAAATTACTGAAATACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * *
82243428 CTTGTAAAATTATC-AAAGTACCC-CAA
1 TTTATAAAATTACCGAAA-TACCCTCGA
* ** *
82243454 TTTATAGAATTACC-ATTTTACCCTTGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* ** *
82243481 TTTATAGAATTACC-ATTTTACCCTCAA
1 TTTATAAAATTACCGA-AATACCCTCGA
* ***
82243508 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* **
82243535 TTTATAGAATTACC-ATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* * *** *
82243562 TTTATAGAATTACTGTTTTACCCTCAA
1 TTTATAAAATTACCGAAATACCCTCGA
* * ***
82243589 TTTACAAAATTACTGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
**
82243616 TTTATAAAATTACC-ATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* **
82243643 TTTATAGAATTACC-ATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* *** *
82243670 TTTATAAAATTACTGTTTTACCCTTGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * ** * *
82243697 TTTACAGAATTATC-ATTTTACCCTTGG
1 TTTATAAAATTACCGA-AATACCCTCGA
* * *
82243724 TTTACAAAATTACCAAAATACCCTAG-
1 TTTATAAAATTACCGAAATACCCTCGA
* * * * *
82243750 TTTGTAAAATTACCAAAATACCATTGG
1 TTTATAAAATTACCGAAATACCCTCGA
* ** * * *
82243777 TTTGTAAAATTACTAAAATACCATTGG
1 TTTATAAAATTACCGAAATACCCTCGA
* *
82243804 TTTATAAAATTACCAAAATACCC-CTGG
1 TTTATAAAATTACCGAAATACCCTC-GA
* *
82243831 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTATAAAATTACCGAAATACCCTC-GA
* * * *
82243858 TTTGTGAAATTATCGAAAAACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* **
82243885 TTCATAAAA-TACTAAAATACCCT
1 TTTATAAAATTACCGAAATACCCT
82243908 TGTAAGGTAA
Statistics
Matches: 490, Mismatches: 79, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
25 15 0.03
26 69 0.14
27 398 0.81
28 8 0.02
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTATAAAATTACCGAAATACCCTCGA
Found at i:82243432 original size:79 final size:80
Alignment explanation
Indices: 82243294--82243467 Score: 262
Period size: 79 Copynumber: 2.2 Consensus size: 80
82243284 AATACTTTAG
* *
82243294 TTTACTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCTTGGACTTGTAAAAT
1 TTTA-TAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAT
*
82243359 TACCAAAGTACCCCCGA
65 TACCAAAGTA-CCCCAA
*
82243376 TTTATAAAATTACCGAAA-ACCGTCGA-TTGTAAAATTACTGAAATACCCTCGACTTGTAAAATT
1 TTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATT
*
82243439 ATCAAAGTACCCCAA
66 ACCAAAGTACCCCAA
*
82243454 TTTATAGAATTACC
1 TTTATAAAATTACC
82243468 ATTTTACCCT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 18 0.21
79 43 0.50
80 7 0.08
81 14 0.16
82 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (80 bp):
TTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATT
ACCAAAGTACCCCAA
Found at i:82243520 original size:54 final size:54
Alignment explanation
Indices: 82243453--82243720 Score: 392
Period size: 54 Copynumber: 5.0 Consensus size: 54
82243443 AAGTACCCCA
* * *
82243453 ATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCA
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
82243507 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
* * * * **
82243561 ATTTATAGAATTACTGTTTTACCCTCAATTTACAAAATTACTGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
* *
82243615 ATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
* * * * *
82243669 ATTTATAAAATTACTGTTTTACCCTTGATTTACAGAATTATCATTTTACCCT
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCT
82243721 TGGTTTACAA
Statistics
Matches: 192, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 192 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.43
Consensus pattern (54 bp):
ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
Found at i:82243747 original size:81 final size:81
Alignment explanation
Indices: 82243453--82243738 Score: 437
Period size: 81 Copynumber: 3.5 Consensus size: 81
82243443 AAGTACCCCA
* *
82243453 ATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTATAGAAT
1 ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAAAAT
*
82243518 TACCGTTTTACCCTCG
66 TACTGTTTTACCCTCG
** *
82243534 ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAAAAT
1 ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAAAAT
82243599 TACTGTTTTACCCTCG
66 TACTGTTTTACCCTCG
* *
82243615 ATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAAT
1 ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAAAAT
*
82243680 TACTGTTTTACCCTTG
66 TACTGTTTTACCCTCG
* * * * * *
82243696 ATTTACAGAATTATCATTTTACCCTTGGTTTACAAAATTACCA
1 ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCA
82243739 AAATACCCTA
Statistics
Matches: 186, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 186 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (81 bp):
ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAAAAT
TACTGTTTTACCCTCG
Found at i:82243932 original size:27 final size:27
Alignment explanation
Indices: 82243894--82244119 Score: 314
Period size: 27 Copynumber: 8.5 Consensus size: 27
82243884 ATTCATAAAA
* * * *
82243894 TACTAAAATACCCTTGTAAGGTAAAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
82243921 TACTGAAATACCCCT-TAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
82243947 TACTGAAATACCCCT-TAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
82243973 TACTGAAATA-CCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* *
82243999 TACTGAAATACCCCTATAGGGTAGAAC
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
82244026 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
82244053 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
** * *
82244080 TACCAAAATACCCCTGTAGGGTAAAAC
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
82244107 TACTGAGATACCC
1 TACTGAAATACCC
82244120 TTATGGGGTA
Statistics
Matches: 182, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
25 4 0.02
26 66 0.36
27 112 0.62
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAT
Found at i:82244436 original size:24 final size:25
Alignment explanation
Indices: 82244340--82244434 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
82244330 AGGAAGTGCT
* * *
82244340 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
82244365 AAAAGGGCTTTGCCCCAGTTTATCC
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
82244390 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
82244415 AAAAGGGCTTTGCCTCAGTT
1 AAAAGGGCTTTGCCCCAGTT
82244435 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:82244447 original size:24 final size:23
Alignment explanation
Indices: 82244340--82244461 Score: 109
Period size: 25 Copynumber: 5.0 Consensus size: 23
82244330 AGGAAGTGCT
* *
82244340 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
82244364 GAAAAGGGCTTTGCCCCAGTTTATCC
1 -AAAAGGGCTTTGCCCCAG-TTAT-C
*
82244390 AAAAGGGCTTTGCCCCAATTTATC
1 AAAAGGGCTTTGCCCC-AGTTATC
* *
82244414 AAAAAGGGCTTTGCCTCAGTTATT
1 -AAAAGGGCTTTGCCCCAGTTATC
**
82244438 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
82244462 ATGATAAAGC
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
23 5 0.06
24 13 0.16
25 63 0.76
26 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:82258057 original size:18 final size:18
Alignment explanation
Indices: 82258011--82258057 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
82258001 TGGCCCATTA
*
82258011 CAGTAACAATAACCAGTG
1 CAGTAACAGTAACCAGTG
* *
82258029 CAGTAATAGTAATCAGTG
1 CAGTAACAGTAACCAGTG
82258047 CAGTAACAGTA
1 CAGTAACAGTA
82258058 TACAAGTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (18 bp):
CAGTAACAGTAACCAGTG
Found at i:82265677 original size:16 final size:16
Alignment explanation
Indices: 82265647--82265701 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
82265637 ATCTTGAAAA
82265647 TTCATTTTATT-TTTAT
1 TTCATTTT-TTATTTAT
82265663 TTCATTTTTTATTTAAAT
1 TTCATTTTTTATTT--AT
*
82265681 TT-A-TTTTTAGTTAT
1 TTCATTTTTTATTTAT
82265695 TTCATTT
1 TTCATTT
82265702 CCTTTGTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
14 4 0.12
15 3 0.09
16 21 0.64
17 1 0.03
18 4 0.12
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (16 bp):
TTCATTTTTTATTTAT
Found at i:82278988 original size:22 final size:21
Alignment explanation
Indices: 82278945--82278988 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
82278935 CTAAACCGAG
* *
82278945 AACTTTAGAAATTTTTGGGAA
1 AACTTTAAAAATTTTCGGGAA
*
82278966 AACTTATAAAAATTTTCGTGAA
1 AACTT-TAAAAATTTTCGGGAA
82278988 A
1 A
82278989 TAGGGTCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (21 bp):
AACTTTAAAAATTTTCGGGAA
Found at i:82280337 original size:12 final size:12
Alignment explanation
Indices: 82280320--82280347 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
82280310 CTAGACTTAA
82280320 TAATATTTAATT
1 TAATATTTAATT
82280332 TAATATTTAATT
1 TAATATTTAATT
82280344 TAAT
1 TAAT
82280348 CTCTAAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:82289116 original size:16 final size:17
Alignment explanation
Indices: 82289095--82289128 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
82289085 CATGTTTTAT
*
82289095 AAATGATAAAT-ATTAA
1 AAATGAAAAATAATTAA
82289111 AAATGAAAAATAATTAA
1 AAATGAAAAATAATTAA
82289128 A
1 A
82289129 TTTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AAATGAAAAATAATTAA
Found at i:82292377 original size:16 final size:16
Alignment explanation
Indices: 82292356--82292387 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
82292346 TAAGTGTCTT
82292356 CTGTACTCATTTCCAA
1 CTGTACTCATTTCCAA
82292372 CTGTACTCATTTCCAA
1 CTGTACTCATTTCCAA
82292388 GACATACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
CTGTACTCATTTCCAA
Found at i:82293924 original size:16 final size:16
Alignment explanation
Indices: 82293903--82293945 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
82293893 TGAGTATAGC
* *
82293903 TGTAATGGAATAGATT
1 TGTAATAGAATAGATA
82293919 TGTAATAGAATAGATA
1 TGTAATAGAATAGATA
82293935 TGTAATA-AATA
1 TGTAATAGAATA
82293946 ATTTAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (16 bp):
TGTAATAGAATAGATA
Found at i:82294216 original size:17 final size:17
Alignment explanation
Indices: 82294194--82294226 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
82294184 AATTATTATT
82294194 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
*
82294211 AAATATGATTTAATAA
1 AAATATAATTTAATAA
82294227 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:82294945 original size:33 final size:33
Alignment explanation
Indices: 82294905--82294972 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
82294895 AAAGTGGCAG
82294905 CATCATTAAATGAAGTAAAAGAATCACTTGTAT
1 CATCATTAAATGAAGTAAAAGAATCACTTGTAT
82294938 CATCATTAAATGAAGTAAAAGAATCACTTGTAT
1 CATCATTAAATGAAGTAAAAGAATCACTTGTAT
82294971 CA
1 CA
82294973 GAAATCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (33 bp):
CATCATTAAATGAAGTAAAAGAATCACTTGTAT
Found at i:82302755 original size:28 final size:28
Alignment explanation
Indices: 82302715--82302770 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
82302705 GAGTTATGCA
**
82302715 ATACCATAAACTTATCTGCTAATAGTAT
1 ATACCATAAACTTATCCACTAATAGTAT
*
82302743 ATACCATACACTTATCCACTAATAGTAT
1 ATACCATAAACTTATCCACTAATAGTAT
82302771 TGCAAACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (28 bp):
ATACCATAAACTTATCCACTAATAGTAT
Found at i:82311448 original size:21 final size:20
Alignment explanation
Indices: 82311419--82311457 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
82311409 TAGAGTTTTA
82311419 TTTTTATTTTATTT-TAATCC
1 TTTTTATTTT-TTTATAATCC
82311439 TTTTTAATTTTTTTATAAT
1 TTTTT-ATTTTTTTATAAT
82311458 TTATTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTTTTATAATCC
Found at i:82311486 original size:25 final size:22
Alignment explanation
Indices: 82311445--82311512 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
82311435 ATCCTTTTTA
82311445 ATTTTT-TTAT-AAT-TTATTT
1 ATTTTTATTATAAATATTATTT
82311464 ATTTTAAATATTATAAATATTATTT
1 ATTTT---TATTATAAATATTATTT
*
82311489 ATTTTTACTATAAATATTATTT
1 ATTTTTATTATAAATATTATTT
82311511 AT
1 AT
82311513 GTATGTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
19 5 0.12
22 19 0.45
23 4 0.10
24 3 0.07
25 11 0.26
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTTATTATAAATATTATTT
Found at i:82311565 original size:7 final size:7
Alignment explanation
Indices: 82311523--82311674 Score: 57
Period size: 7 Copynumber: 20.9 Consensus size: 7
82311513 GTATGTAAAA
82311523 ATTATTAT
1 ATTATT-T
*
82311531 ATATATAT
1 AT-TATTT
82311539 ATTATTT
1 ATTATTT
82311546 -TTATTT
1 ATTATTT
82311552 -TTATATT
1 ATTAT-TT
82311559 ATTTATTAT
1 A-TTATT-T
82311568 ATTATTT
1 ATTATTT
*
82311575 ACATTTTATT
1 --ATTAT-TT
82311585 ATATATTT
1 AT-TATTT
*
82311593 -TGATTT
1 ATTATTT
*
82311599 ATACATTTT
1 AT-TA-TTT
*
82311608 ATTATAT
1 ATTATTT
*
82311615 ATTATTC
1 ATTATTT
82311622 ATTA--T
1 ATTATTT
82311627 ATT-TTT
1 ATTATTT
82311633 -TTATTTT
1 ATTA-TTT
*
82311640 ATTATAT
1 ATTATTT
* *
82311647 ACTATATA
1 ATTAT-TT
82311655 ATTATTT
1 ATTATTT
82311662 ATTATTT
1 ATTATTT
82311669 ATTATT
1 ATTATT
82311675 ATGTATAATT
Statistics
Matches: 109, Mismatches: 17, Indels: 37
0.67 0.10 0.23
Matches are distributed among these distances:
5 5 0.05
6 15 0.14
7 43 0.39
8 24 0.22
9 20 0.18
10 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (7 bp):
ATTATTT
Found at i:82311584 original size:26 final size:26
Alignment explanation
Indices: 82311555--82311673 Score: 93
Period size: 26 Copynumber: 4.5 Consensus size: 26
82311545 TTTATTTTTA
*
82311555 TATTATTTATTATATTATTTACATTT
1 TATTATTTATTATATTATATACATTT
* *
82311581 TATTATATATTTTGATT-TATACATTT
1 TATTATTTATTAT-ATTATATACATTT
* * *
82311607 TATTATATATTAT-TCAT-TATATTT
1 TATTATTTATTATATTATATACATTT
*
82311631 TTTTATTTTATTATATACTATATA-ATTATT
1 TATTA-TTTATTATAT--TATATACA-T-TT
82311661 TATTATTTATTAT
1 TATTATTTATTAT
82311674 TATGTATAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
24 11 0.15
25 8 0.11
26 32 0.43
27 3 0.04
28 3 0.04
29 11 0.15
30 6 0.08
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (26 bp):
TATTATTTATTATATTATATACATTT
Found at i:82311681 original size:27 final size:25
Alignment explanation
Indices: 82311538--82311686 Score: 89
Period size: 26 Copynumber: 5.7 Consensus size: 25
82311528 TATATATATA
*
82311538 TATTATT-TT-TATTTTTATATTATT
1 TATTATTATTATAATTTT-TATTATT
*
82311562 TATTA-TATTATTTACA-TTTTATTATA
1 TATTATTATTA--TA-ATTTTTATTATT
*
82311588 TATT-TTGATTTATACA-TTTTATTATA
1 TATTATT-A-TTATA-ATTTTTATTATT
82311614 TATTATTCATTAT-ATTTTT-TTATTT
1 TATTATT-ATTATAATTTTTATTA-TT
82311639 TATTATATACTATATAATTATTTATTATT
1 TATTAT-TA-T-TATAATT-TTTATTATT
82311668 TATTATTATGTATAATTTT
1 TATTATTAT-TATAATTTT
82311687 AAAAATTTGT
Statistics
Matches: 103, Mismatches: 5, Indels: 32
0.74 0.04 0.23
Matches are distributed among these distances:
23 1 0.01
24 11 0.11
25 12 0.12
26 37 0.36
27 20 0.19
28 8 0.08
29 11 0.11
30 3 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (25 bp):
TATTATTATTATAATTTTTATTATT
Found at i:82312088 original size:18 final size:18
Alignment explanation
Indices: 82312065--82312099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
82312055 ATCTCATAAA
*
82312065 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
82312083 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
82312100 ATATTCGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:82315744 original size:2 final size:2
Alignment explanation
Indices: 82315737--82315767 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
82315727 GTTAAAATTA
82315737 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
82315768 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:82323623 original size:44 final size:43
Alignment explanation
Indices: 82323527--82323915 Score: 292
Period size: 44 Copynumber: 8.9 Consensus size: 43
82323517 TCACCGATAG
** * * *
82323527 CAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATTGATGATAGA
1 CAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGA--AGAGA
* *
82323573 -AGATTTGGCGTCTCTGTGTTGACAGAGAGCAGATCAAAGACGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
* * * * * *
82323616 CATATTTGGCATCTCTGTATTGAACGGGGAGTAGATCGAAGATA
1 CAGATTTGGCGTCTCTGTATTG-ACAGAGAGCAGATCGAAGAGA
* * * *
82323660 GCAGATTTGACAT-TCGTGTA-T--CA-A-AGCAGATCAAAGATAA
1 -CAGATTTGGCGTCTC-TGTATTGACAGAGAGCAGATCGAAGA-GA
* * * *
82323700 CAGATTTGGCGTCTCTGTATTGACAGAGGGAAAATCGAAGATA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAGA
* * *
82323743 GCAGATTTGGCGTCTCTGTATTGATAGAGAGCAAATCGAAGATAA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
* * * *
82323788 CAGATTTGGCGTTTCTGTATTGAAAAAGGGCAGATCGAAG-GTA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAG-A
* * * *
82323831 GCAAATTTGGTGTCTCTGTATTGATAGAGAGTAGATCGAAGATGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
82323876 CAGATTTGGCGTCTCTGTATTAGAC-GAAGAGCAGATCGAA
1 CAGATTTGGCGTCTCTGTATT-GACAG-AGAGCAGATCGAA
82323916 AATAGCAGAT
Statistics
Matches: 273, Mismatches: 50, Indels: 41
0.75 0.14 0.11
Matches are distributed among these distances:
39 25 0.09
40 4 0.01
41 1 0.00
42 4 0.01
43 5 0.02
44 169 0.62
45 64 0.23
46 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.27
Consensus pattern (43 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAGA
Found at i:82323805 original size:88 final size:87
Alignment explanation
Indices: 82323522--82323925 Score: 383
Period size: 88 Copynumber: 4.6 Consensus size: 87
82323512 GTAGATCACC
* * * * *
82323522 GATAGCAGATTTGGCGTCTCTGTATTAGATG-GGGAGCAGATTGATGATAGAAGATTTGGCGTCT
1 GATAACAGATTTGGCGTCTCTGTATT-GAAGAGGGA--AGATCGAAGATAGCAGATTTGGCGTCT
*
82323586 CTGTGTTGACAGAGAGCAGATCAAA
63 CTGTATTGACAGAGAGCAGATCAAA
** * * * *
82323611 GACGACATATTTGGCATCTCTGTATTGAACG-GGGAGTAGATCGAAGATAGCAGATTTGACAT-T
1 GATAACAGATTTGGCGTCTCTGTATTGAA-GAGGGA--AGATCGAAGATAGCAGATTTGGCGTCT
82323674 CGTGTA-T--CA-A-AGCAGATCAAA
63 C-TGTATTGACAGAGAGCAGATCAAA
*
82323695 GATAACAGATTTGGCGTCTCTGTATTGACAGAGGGAAAATCGAAGATAGCAGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGA-AGAGGGAAGATCGAAGATAGCAGATTTGGCGTCTCT
* * *
82323760 GTATTGATAGAGAGCAAATCGAA
65 GTATTGACAGAGAGCAGATCAAA
* * * * * *
82323783 GATAACAGATTTGGCGTTTCTGTATTGAAAAAGGGCAGATCGAAGGTAGCAAATTTGGTGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTG-AAGAGGGAAGATCGAAGATAGCAGATTTGGCGTCTCT
* * *
82323848 GTATTGATAGAGAGTAGATCGAA
65 GTATTGACAGAGAGCAGATCAAA
* * * * *
82323871 GATGACAGATTTGGCGTCTCTGTATTAGACGAAGAGCAGATCGAAAATAGCAGAT
1 GATAACAGATTTGGCGTCTCTGTATT-GAAG-AGGGAAGATCGAAGATAGCAGAT
82323926 CTGACATTCG
Statistics
Matches: 262, Mismatches: 40, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
83 26 0.10
84 39 0.15
85 6 0.02
86 3 0.01
87 1 0.00
88 116 0.44
89 71 0.27
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (87 bp):
GATAACAGATTTGGCGTCTCTGTATTGAAGAGGGAAGATCGAAGATAGCAGATTTGGCGTCTCTG
TATTGACAGAGAGCAGATCAAA
Found at i:82323943 original size:20 final size:20
Alignment explanation
Indices: 82323918--82323973 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
82323908 AGATCGAAAA
82323918 TAGCAGATCTGACATTCGTG
1 TAGCAGATCTGACATTCGTG
*
82323938 TAGCAGATC-GA-A---G-A
1 TAGCAGATCTGACATTCGTG
82323952 TAGCAGATCTGACATTCGTG
1 TAGCAGATCTGACATTCGTG
82323972 TA
1 TA
82323974 TCGAAGCAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 1 0.04
18 1 0.04
19 3 0.11
20 11 0.39
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (20 bp):
TAGCAGATCTGACATTCGTG
Found at i:82323948 original size:34 final size:34
Alignment explanation
Indices: 82323905--82323973 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
82323895 TTAGACGAAG
82323905 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
1 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
*
82323939 AGCAGATCGAAGATAGCAGATCTGACATTCGTGT
1 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
82323973 A
1 A
82323974 TCGAAGCAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (34 bp):
AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
Found at i:82324181 original size:84 final size:84
Alignment explanation
Indices: 82323939--82324183 Score: 375
Period size: 84 Copynumber: 2.9 Consensus size: 84
82323929 ACATTCGTGT
* * *
82323939 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACATATTCGGC
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
* * * *
82324004 GTCTCTATATTAGGCGGAG
66 GTCTCTGTATTAGACAGAA
*
82324023 AGCAGATCGAAA-ATAGCAGATTTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGG
1 AGCAGATC-AAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGG
82324087 CGTCTCTGTATTAGACAGAA
65 CGTCTCTGTATTAGACAGAA
* *
82324107 AGTAGATCAAAGATAGCAGATCTGACATTCGTGTATTGAAGCAGATCAAAGATGACAGATTTGGC
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
*
82324172 GTCTTTGTATTA
66 GTCTCTGTATTA
82324184 AACGGGCAGC
Statistics
Matches: 147, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
83 3 0.02
84 142 0.97
85 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (84 bp):
AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
GTCTCTGTATTAGACAGAA
Found at i:82324182 original size:39 final size:39
Alignment explanation
Indices: 82323970--82324182 Score: 130
Period size: 39 Copynumber: 5.2 Consensus size: 39
82323960 CTGACATTCG
* * *
82323970 TGTATCGAAGCAGATCAAAGATGACATATTCGGCGTCTC
1 TGTATTGAAGCAGATCAAAGATGACAGATTTGGCGTCTC
* * *
82324009 TATATTAGGCGGAGAGCAGATCGAAA-AT-AGCAGATTTGACAT-TC
1 TGTATT-----GA-AGCAGATC-AAAGATGA-CAGATTTGGCGTCTC
*
82324053 GTGTATCGAAGCAGATCAAAGATGACAGATTTGGCGTCTC
1 -TGTATTGAAGCAGATCAAAGATGACAGATTTGGCGTCTC
* * * *
82324093 TGTATTAGACAGAAAGTAGATCAAAGAT-AGCAGATCTGACAT-TC
1 TGTATT-----G-AAGCAGATCAAAGATGA-CAGATTTGGCGTCTC
*
82324137 GTGTATTGAAGCAGATCAAAGATGACAGATTTGGCGTCTT
1 -TGTATTGAAGCAGATCAAAGATGACAGATTTGGCGTCTC
82324177 TGTATT
1 TGTATT
82324183 AAACGGGCAG
Statistics
Matches: 132, Mismatches: 20, Indels: 44
0.67 0.10 0.22
Matches are distributed among these distances:
38 3 0.02
39 58 0.44
40 8 0.06
44 9 0.07
45 51 0.39
46 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (39 bp):
TGTATTGAAGCAGATCAAAGATGACAGATTTGGCGTCTC
Found at i:82324252 original size:69 final size:69
Alignment explanation
Indices: 82324121--82324335 Score: 270
Period size: 69 Copynumber: 3.1 Consensus size: 69
82324111 GATCAAAGAT
* * *
82324121 AGCAGATCTGACATTCGTGTATTGAAGCAGATCAAAGATGACAGATTTGGCGTCT-TTGTATTAA
1 AGCAGATC-GACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTT-TATTAG
82324185 ACGGGC
64 ACGGGC
* * * * * *
82324191 AGCGGATCGACATTCCTCTATCGAAGCAAATCGAATATGACAGATTTGGCATCTCTTTATTAGAC
1 AGCAGATCGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
*
82324256 GGGG
66 GGGC
* * * *
82324260 AGCAGATCGACATTCGTGTATCAAAACAGATCAAAGGTGACAGATTTGGCATCTCTGTATTAGAC
1 AGCAGATCGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
*
82324325 GGGG
66 GGGC
82324329 AGCAGAT
1 AGCAGAT
82324336 TGAGAATAGC
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
69 115 0.93
70 9 0.07
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (69 bp):
AGCAGATCGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
GGGC
Found at i:82325879 original size:20 final size:20
Alignment explanation
Indices: 82325842--82325891 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
82325832 TAGAGTTTTA
*
82325842 TTTTTATTTTATTTTAATCC
1 TTTTTATTTTATTATAATCC
82325862 TTTTTAATTTT-TTATAAT--
1 TTTTT-ATTTTATTATAATCC
82325880 TTATTTATTTTA
1 TT-TTTATTTTA
82325892 AATATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 7 0.27
19 3 0.12
20 11 0.42
21 5 0.19
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTATTATAATCC
Found at i:82325890 original size:16 final size:17
Alignment explanation
Indices: 82325871--82325908 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
82325861 CTTTTTAATT
*
82325871 TTTTATAAT-TTATTTA
1 TTTTATAATATTATATA
82325887 TTTTA-AATATTATATA
1 TTTTATAATATTATATA
82325903 TTTTAT
1 TTTTAT
82325909 TTATTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATAATATTATATA
Found at i:82325890 original size:25 final size:25
Alignment explanation
Indices: 82325862--82325917 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
82325852 ATTTTAATCC
* *
82325862 TTTTTAATTTTTTATAATTTATTTA
1 TTTTTAATATTATATAATTTATTTA
* *
82325887 TTTTAAATATTATATATTTTATTTA
1 TTTTTAATATTATATAATTTATTTA
82325912 TTTTTA
1 TTTTTA
82325918 CTATAAACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTAATATTATATAATTTATTTA
Found at i:82325962 original size:12 final size:12
Alignment explanation
Indices: 82325945--82326099 Score: 60
Period size: 12 Copynumber: 13.1 Consensus size: 12
82325935 GTATGTAAAA
82325945 ATTATTATATAT
1 ATTATTATATAT
82325957 ATTATT-T-T-T
1 ATTATTATATAT
*
82325966 ATTTTTATAT-T
1 ATTATTATATAT
82325977 A-T-TTAT-TAT
1 ATTATTATATAT
*
82325986 ATTATT-TACAT
1 ATTATTATATAT
*
82325997 TTTATTATATAT
1 ATTATTATATAT
* *
82326009 TTTGATTTATACAT
1 ATT-A-TTATATAT
*
82326023 TTTATTATATATT
1 ATTATTATATA-T
* *
82326036 TTTCATTATATTTT
1 ATT-ATTATA-TAT
* *
82326050 TTTATTTTAT-T
1 ATTATTATATAT
82326061 ATATATTATATA-
1 AT-TATTATATAT
*
82326073 ATTATTTATTATTT
1 ATTA-TTA-TATAT
*
82326087 ATTATTATGTAT
1 ATTATTATATAT
82326099 A
1 A
82326100 ATTTTAAAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 34
0.71 0.08 0.21
Matches are distributed among these distances:
8 1 0.01
9 12 0.11
10 5 0.04
11 17 0.15
12 36 0.32
13 17 0.15
14 24 0.21
15 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:82325976 original size:26 final size:26
Alignment explanation
Indices: 82325946--82326034 Score: 85
Period size: 26 Copynumber: 3.4 Consensus size: 26
82325936 TATGTAAAAA
**
82325946 TTATTATATATATTATT-TTTATTTT
1 TTATTATATATATTATTATTTACATT
*
82325971 TATATTATTTAT-TATATTATTTACATT
1 T-TATTATATATAT-TATTATTTACATT
* *
82325998 TTATTATATATTTTGATT-TATACATT
1 TTATTATATATATT-ATTATTTACATT
82326024 TTATTATATAT
1 TTATTATATAT
82326035 TTTTCATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
25 2 0.04
26 41 0.76
27 11 0.20
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (26 bp):
TTATTATATATATTATTATTTACATT
Found at i:82326033 original size:14 final size:13
Alignment explanation
Indices: 82325985--82326105 Score: 63
Period size: 14 Copynumber: 9.2 Consensus size: 13
82325975 TTATTTATTA
*
82325985 TATTATTTACATTT
1 TATTATATA-ATTT
82325999 TATTATAT-ATTT
1 TATTATATAATTT
82326011 TGATT-TATACATTT
1 T-ATTATATA-ATTT
*
82326025 TATTATATATTTT
1 TATTATATAATTT
**
82326038 TCATTATATTTTTT
1 T-ATTATATAATTT
* * *
82326052 TATTTTATTA-TA
1 TATTATATAATTT
82326064 TATTATATAATTATT
1 TATTATATAA-T-TT
*
82326079 TATTAT-TTATTAT
1 TATTATATAATT-T
*
82326092 TA-TGTATAATTT
1 TATTATATAATTT
82326104 TA
1 TA
82326106 AAAATTTGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 22
0.71 0.10 0.18
Matches are distributed among these distances:
12 23 0.27
13 25 0.29
14 30 0.35
15 7 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
TATTATATAATTT
Found at i:82326051 original size:26 final size:26
Alignment explanation
Indices: 82325992--82326042 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
82325982 TTATATTATT
*
82325992 TACATTTTATTATATATTTTGATTTA
1 TACATTTTATTATATATTTTCATTTA
82326018 TACATTTTATTATATATTTTTCATT
1 TACATTTTATTATATA-TTTTCATT
82326043 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (26 bp):
TACATTTTATTATATATTTTCATTTA
Found at i:82326060 original size:13 final size:13
Alignment explanation
Indices: 82326022--82326060 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
82326012 GATTTATACA
82326022 TTTTATTATATATT
1 TTTTATTATAT-TT
*
82326036 TTTCATTATATTT
1 TTTTATTATATTT
*
82326049 TTTTATTTTATT
1 TTTTATTATATT
82326061 ATATATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTATTATATTT
Found at i:82326084 original size:40 final size:39
Alignment explanation
Indices: 82325947--82326084 Score: 101
Period size: 40 Copynumber: 3.5 Consensus size: 39
82325937 ATGTAAAAAT
* * *
82325947 TATTATATATATTATT-TT-TATTTTTATATTAT-TTATTA
1 TATTATATA-ATTTTTATTATATTTTTTTATTTTATTA-TA
* * *
82325985 TATTATTTACA-TTTTATTATATATTTTGATTTATACATT-T-
1 TATTATATA-ATTTTTATTATATTTTTTTATTT-T--ATTATA
82326025 TATTATAT-ATTTTTCATTATATTTTTTTATTTTATTATA
1 TATTATATAATTTTT-ATTATATTTTTTTATTTTATTATA
82326064 TATTATATAATTATTTATTAT
1 TATTATATAATT-TTTATTAT
82326085 TTATTATTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
37 6 0.08
38 13 0.17
39 22 0.28
40 31 0.40
41 4 0.05
43 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (39 bp):
TATTATATAATTTTTATTATATTTTTTTATTTTATTATA
Found at i:82326388 original size:22 final size:22
Alignment explanation
Indices: 82326346--82326389 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
82326336 ACCTCATTTA
*
82326346 ATTTTAATTATATTTAGTTTTT
1 ATTTTAATTATATATAGTTTTT
*
82326368 ATTTT-ATATATATATATTTTTT
1 ATTTTAAT-TATATATAGTTTTT
82326390 GACTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
ATTTTAATTATATATAGTTTTT
Found at i:82326979 original size:20 final size:20
Alignment explanation
Indices: 82326942--82326991 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
82326932 TAGAGTTTTA
*
82326942 TTTTTATTTTATTTTAATCC
1 TTTTTATTTTATTATAATCC
82326962 TTTTTAATTTT-TTATAAT--
1 TTTTT-ATTTTATTATAATCC
82326980 TTATTTATTTTA
1 TT-TTTATTTTA
82326992 AATATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 7 0.27
19 3 0.12
20 11 0.42
21 5 0.19
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTATTATAATCC
Found at i:82326990 original size:16 final size:17
Alignment explanation
Indices: 82326971--82327008 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
82326961 CTTTTTAATT
*
82326971 TTTTATAAT-TTATTTA
1 TTTTATAATATTATATA
82326987 TTTTA-AATATTATATA
1 TTTTATAATATTATATA
82327003 TTTTAT
1 TTTTAT
82327009 TTATTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATAATATTATATA
Found at i:82326990 original size:25 final size:25
Alignment explanation
Indices: 82326962--82327017 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
82326952 ATTTTAATCC
* *
82326962 TTTTTAATTTTTTATAATTTATTTA
1 TTTTTAATATTATATAATTTATTTA
* *
82326987 TTTTAAATATTATATATTTTATTTA
1 TTTTTAATATTATATAATTTATTTA
82327012 TTTTTA
1 TTTTTA
82327018 CTATAAACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTAATATTATATAATTTATTTA
Found at i:82327076 original size:26 final size:26
Alignment explanation
Indices: 82327046--82327134 Score: 85
Period size: 26 Copynumber: 3.4 Consensus size: 26
82327036 TATGTAAAAA
**
82327046 TTATTATATATATTATT-TTTATTTT
1 TTATTATATATATTATTATTTACATT
*
82327071 TATATTATTTAT-TATATTATTTACATT
1 T-TATTATATATAT-TATTATTTACATT
* *
82327098 TTATTATATATTTTGATT-TATACATT
1 TTATTATATATATT-ATTATTTACATT
82327124 TTATTATATAT
1 TTATTATATAT
82327135 TGTTCATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
25 2 0.04
26 41 0.76
27 11 0.20
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (26 bp):
TTATTATATATATTATTATTTACATT
Found at i:82327083 original size:7 final size:7
Alignment explanation
Indices: 82327046--82327192 Score: 56
Period size: 7 Copynumber: 20.1 Consensus size: 7
82327036 TATGTAAAAA
82327046 TTATTAT
1 TTATTAT
82327053 ATATATTAT
1 -T-TATTAT
82327062 TT-TTAT
1 TTATTAT
82327068 TT-TTAT
1 TTATTAT
82327074 ATTATTTAT
1 -TTA-TTAT
82327083 TATATTAT
1 T-TATTAT
*
82327091 TTACATTTT
1 TT--ATTAT
82327100 ATTATATAT
1 -TTAT-TAT
*
82327109 TT-TGAT
1 TTATTAT
*
82327115 TTATACATT
1 TTAT-TA-T
82327124 TTATTAT
1 TTATTAT
* *
82327131 ATATTGT
1 TTATTAT
*
82327138 TCATTA-
1 TTATTAT
82327144 -TATT-T
1 TTATTAT
82327149 TT-TTATT
1 TTATTA-T
82327156 TTATTAT
1 TTATTAT
*
82327163 ATATTAT
1 TTATTAT
*
82327170 ATAATTAT
1 -TTATTAT
82327178 TTATTAT
1 TTATTAT
82327185 TTATTAT
1 TTATTAT
82327192 T
1 T
82327193 ATGTATAATT
Statistics
Matches: 106, Mismatches: 15, Indels: 37
0.67 0.09 0.23
Matches are distributed among these distances:
5 5 0.05
6 15 0.14
7 39 0.37
8 22 0.21
9 23 0.22
10 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (7 bp):
TTATTAT
Found at i:82327143 original size:14 final size:12
Alignment explanation
Indices: 82327046--82327205 Score: 77
Period size: 12 Copynumber: 13.2 Consensus size: 12
82327036 TATGTAAAAA
*
82327046 TTATTATATATA
1 TTATTATATATT
* *
82327058 TTATTTTTATTTT
1 TTA-TTATATATT
*
82327071 TATATTATTTATT
1 T-TATTATATATT
* *
82327084 ATATTATTTACATT
1 TTATTA--TATATT
82327098 TTATTATATATT
1 TTATTATATATT
*
82327110 TTGATTTATACATT
1 TT-A-TTATATATT
82327124 TTATTATATATT
1 TTATTATATATT
82327136 GTTCA-T-TATA-T
1 -TT-ATTATATATT
82327147 TT-TT-T-TATT
1 TTATTATATATT
82327156 TTATTATATATT
1 TTATTATATATT
* *
82327168 ATATAAT-TA-T
1 TTATTATATATT
*
82327178 TTATTATTTATT
1 TTATTATATATT
82327190 ATTATGTATA-ATT
1 -TTAT-TATATATT
82327203 TTA
1 TTA
82327206 AAAATTTGTA
Statistics
Matches: 113, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
8 2 0.02
9 5 0.04
10 10 0.09
11 6 0.05
12 40 0.35
13 25 0.22
14 25 0.22
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (12 bp):
TTATTATATATT
Found at i:82327151 original size:26 final size:26
Alignment explanation
Indices: 82327092--82327142 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
82327082 TTATATTATT
*
82327092 TACATTTTATTATATATTTTGATTTA
1 TACATTTTATTATATATTTTCATTTA
82327118 TACATTTTATTATATATTGTTCATT
1 TACATTTTATTATATATT-TTCATT
82327143 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (26 bp):
TACATTTTATTATATATTTTCATTTA
Found at i:82327184 original size:40 final size:40
Alignment explanation
Indices: 82327047--82327184 Score: 98
Period size: 40 Copynumber: 3.5 Consensus size: 40
82327037 ATGTAAAAAT
82327047 TATTATATATATTATTT-TTAT-TTTTATATTA-TTTATTATA
1 TATTATATA-ATTATTTATTATATTTT-T-TTATTTTATTATA
* * *
82327087 TTATT-TA-CA-T-TTTATTATATATTTTGATTTATACATT-T-
1 -TATTATATAATTATTTATTATATTTTTTTATTT-T--ATTATA
* *
82327125 TATTATAT-ATTGTTCATTATATTTTTTTATTTTATTATA
1 TATTATATAATTATTTATTATATTTTTTTATTTTATTATA
82327164 TATTATATAATTATTTATTAT
1 TATTATATAATTATTTATTAT
82327185 TTATTATTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 27
0.68 0.07 0.24
Matches are distributed among these distances:
36 5 0.07
37 15 0.20
38 9 0.12
39 11 0.14
40 32 0.42
41 4 0.05
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (40 bp):
TATTATATAATTATTTATTATATTTTTTTATTTTATTATA
Found at i:82327488 original size:22 final size:22
Alignment explanation
Indices: 82327446--82327489 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
82327436 ACCTCATTTA
*
82327446 ATTTTAATTATATTTAGTTTTT
1 ATTTTAATTATATATAGTTTTT
*
82327468 ATTTT-ATATATATATATTTTTT
1 ATTTTAAT-TATATATAGTTTTT
82327490 GACTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
ATTTTAATTATATATAGTTTTT
Found at i:82327610 original size:18 final size:18
Alignment explanation
Indices: 82327587--82327621 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
82327577 ATCTCATAAA
*
82327587 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
82327605 TTATTTATTATTTTTAT
1 TTATTTATTATTTTTAT
82327622 ATATTCGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:82327687 original size:43 final size:41
Alignment explanation
Indices: 82327595--82327698 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 41
82327585 AATTATTTGT
* *
82327595 TATTTTTATGTTAT-TTATTATTTTTATATATTCGCATGAAA
1 TATTATTAT-TTATGTTATTATTTTAATATATTCGCATGAAA
*
82327636 -ATTAATTATTTATGTTATTATTTTAAGTTATATTTGCATGAAA
1 TATT-ATTATTTATGTTATTATTTTAA--TATATTCGCATGAAA
*
82327679 TATTATTATATATG-TATTAT
1 TATTATTATTTATGTTATTAT
82327699 GTAATTTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
40 7 0.13
41 15 0.28
42 6 0.11
43 23 0.43
44 3 0.06
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.57
Consensus pattern (41 bp):
TATTATTATTTATGTTATTATTTTAATATATTCGCATGAAA
Found at i:82330355 original size:93 final size:93
Alignment explanation
Indices: 82330243--82330414 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
82330233 GCCCATAAGT
* *
82330243 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
82330308 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
82330336 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
82330401 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
82330415 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:82330410 original size:46 final size:46
Alignment explanation
Indices: 82330235--82330410 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
82330225 TGTAACCCGC
* * *
82330235 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
82330281 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
82330331 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
82330374 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
82330411 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:82332837 original size:30 final size:30
Alignment explanation
Indices: 82332793--82332881 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
82332783 CAAAGATAAC
82332793 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
82332822 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
82332852 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
82332882 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:82332841 original size:15 final size:15
Alignment explanation
Indices: 82332793--82332872 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
82332783 CAAAGATAAC
*
82332793 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
82332807 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
82332822 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
82332837 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
82332852 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
82332867 AAGAAA
1 AAGAAA
82332873 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Done.